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20.320 Analysis of Biomolecular and Cellular Systems (MIT) 20.320 Analysis of Biomolecular and Cellular Systems (MIT)

Description

This course focuses on computational and experimental analysis of biological systems across a hierarchy of scales, including genetic, molecular, cellular, and cell population levels. The two central themes of the course are modeling of complex dynamic systems and protein design and engineering. Topics include gene sequence analysis, molecular modeling, metabolic and gene regulation networks, signal transduction pathways and cell populations in tissues. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling. This course focuses on computational and experimental analysis of biological systems across a hierarchy of scales, including genetic, molecular, cellular, and cell population levels. The two central themes of the course are modeling of complex dynamic systems and protein design and engineering. Topics include gene sequence analysis, molecular modeling, metabolic and gene regulation networks, signal transduction pathways and cell populations in tissues. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling.

Subjects

biological engineering | biological engineering | kinase | kinase | PyMOL | PyMOL | PyRosetta | PyRosetta | MATLAB | MATLAB | Michaelis-Menten | Michaelis-Menten | bioreactor | bioreactor | bromodomain | bromodomain | protein-ligand interactions | protein-ligand interactions | titration analysis | titration analysis | fractional separation | fractional separation | isothermal titration calorimetry | isothermal titration calorimetry | ITC | ITC | mass spectrometry | mass spectrometry | MS | MS | co-immunoprecipitation | co-immunoprecipitation | Co-IP | Co-IP | Forster resonance energy transfer | Forster resonance energy transfer | FRET | FRET | primary ligation assay | primary ligation assay | PLA | PLA | surface plasmon resonance | surface plasmon resonance | SPR | SPR | enzyme kinetics | enzyme kinetics | kinase engineering | kinase engineering | competitive inhibition | competitive inhibition | epidermal growth factor receptor | epidermal growth factor receptor | mitogen-activated protein kinase | mitogen-activated protein kinase | MAPK | MAPK | genome editing | genome editing | Imatinib | Imatinib | Gleevec | Gleevec | Glivec | Glivec | drug delivery | drug delivery | kinetics of molecular processes | kinetics of molecular processes | dynamics of molecular processes | dynamics of molecular processes | kinetics of cellular processes | kinetics of cellular processes | dynamics of cellular processes | dynamics of cellular processes | intracellular scale | intracellular scale | extracellular scale | extracellular scale | and cell population scale | and cell population scale | biotechnology applications | biotechnology applications | gene regulation networks | gene regulation networks | nucleic acid hybridization | nucleic acid hybridization | signal transduction pathways | signal transduction pathways | cell populations in tissues | cell populations in tissues | cell populations in bioreactors | cell populations in bioreactors | experimental methods | experimental methods | quantitative analysis | quantitative analysis | computational modeling | computational modeling

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see http://ocw.mit.edu/terms/index.htm

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20.320 Biomolecular Kinetics and Cell Dynamics (MIT) 20.320 Biomolecular Kinetics and Cell Dynamics (MIT)

Description

This class covers analysis of kinetics and dynamics of molecular and cellular processes across a hierarchy of scales, including intracellular, extracellular, and cell population levels; a spectrum of biotechnology applications are also taken into consideration. Topics include gene regulation networks; nucleic acid hybridization; signal transduction pathways; and cell populations in tissues and bioreactors. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling. This class covers analysis of kinetics and dynamics of molecular and cellular processes across a hierarchy of scales, including intracellular, extracellular, and cell population levels; a spectrum of biotechnology applications are also taken into consideration. Topics include gene regulation networks; nucleic acid hybridization; signal transduction pathways; and cell populations in tissues and bioreactors. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling.

Subjects

kinetics of molecular processes | kinetics of molecular processes | dynamics of molecular processes | dynamics of molecular processes | kinetics of cellular processes | kinetics of cellular processes | dynamics of cellular processes | dynamics of cellular processes | intracellular scale | intracellular scale | extracellular scale | extracellular scale | and cell population scale | and cell population scale | biotechnology applications | biotechnology applications | gene regulation networks | gene regulation networks | nucleic acid hybridization | nucleic acid hybridization | signal transduction pathways | signal transduction pathways | cell populations in tissues | cell populations in tissues | cell populations in bioreactors | cell populations in bioreactors | experimental methods | experimental methods | quantitative analysis | quantitative analysis | computational modeling | computational modeling | cell population scale | cell population scale

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see http://ocw.mit.edu/terms/index.htm

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7.349 Biological Computing: At the Crossroads of Engineering and Science (MIT) 7.349 Biological Computing: At the Crossroads of Engineering and Science (MIT)

Description

Imagine you are a salesman needing to visit 100 cities connected by a set of roads. Can you do it while stopping in each city only once? Even a supercomputer working at 1 trillion operations per second would take longer than the age of the universe to find a solution when considering each possibility in turn. In 1994, Leonard Adleman published a paper in which he described a solution, using the tools of molecular biology, for a smaller 7-city example of this problem. His paper generated enormous scientific and public interest, and kick-started the field of Biological Computing, the main subject of this discussion based seminar course. Students will analyze the Adleman paper, and the papers that preceded and followed it, with an eye for identifying the engineering and scientific aspects of Imagine you are a salesman needing to visit 100 cities connected by a set of roads. Can you do it while stopping in each city only once? Even a supercomputer working at 1 trillion operations per second would take longer than the age of the universe to find a solution when considering each possibility in turn. In 1994, Leonard Adleman published a paper in which he described a solution, using the tools of molecular biology, for a smaller 7-city example of this problem. His paper generated enormous scientific and public interest, and kick-started the field of Biological Computing, the main subject of this discussion based seminar course. Students will analyze the Adleman paper, and the papers that preceded and followed it, with an eye for identifying the engineering and scientific aspects of

Subjects

biological computing | biological computing | Leonard Adleman | Leonard Adleman | exquisite detection | exquisite detection | whole-cell computing | whole-cell computing | computation | computation | molecular biology | molecular biology | biotin-avidin | biotin-avidin | magnetic beads | magnetic beads | cellular processes | cellular processes | combinatorial problems | combinatorial problems | self-assembly | self-assembly | nanodevices | nanodevices | molecular machines | molecular machines | quorum sensing | quorum sensing | molecular switches | molecular switches | ciliates | ciliates | molecular gates | molecular gates | molecular circuits | molecular circuits | genetic switch | genetic switch | cellular networks | cellular networks | genetic networks | genetic networks | genetic circuits | genetic circuits

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see http://ocw.mit.edu/terms/index.htm

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20.400J Perspectives in Biological Engineering (MIT) 20.400J Perspectives in Biological Engineering (MIT)

Description

This seminar-format course provides an in-depth presentation and discussion of how engineering and biological approaches can be combined to solve problems in science and technology, emphasizing integration of biological information and methodologies with engineering analysis, synthesis, and design. Emphasis is placed on molecular mechanisms underlying cellular processes, including signal transduction, gene expression networks, and functional responses. This seminar-format course provides an in-depth presentation and discussion of how engineering and biological approaches can be combined to solve problems in science and technology, emphasizing integration of biological information and methodologies with engineering analysis, synthesis, and design. Emphasis is placed on molecular mechanisms underlying cellular processes, including signal transduction, gene expression networks, and functional responses.

Subjects

integration of biological information and methodologies | integration of biological information and methodologies | engineering analysis | engineering analysis | synthesis | synthesis | design | design | molecular mechanisms underlying cellular processes | molecular mechanisms underlying cellular processes | signal transduction | signal transduction | gene expression networks | gene expression networks | functional responses | functional responses | 20.400 | 20.400 | 7.548 | 7.548

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see http://ocw.mit.edu/terms/index.htm

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20.320 Biomolecular Kinetics and Cell Dynamics (MIT)

Description

This class covers analysis of kinetics and dynamics of molecular and cellular processes across a hierarchy of scales, including intracellular, extracellular, and cell population levels; a spectrum of biotechnology applications are also taken into consideration. Topics include gene regulation networks; nucleic acid hybridization; signal transduction pathways; and cell populations in tissues and bioreactors. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling.

Subjects

kinetics of molecular processes | dynamics of molecular processes | kinetics of cellular processes | dynamics of cellular processes | intracellular scale | extracellular scale | and cell population scale | biotechnology applications | gene regulation networks | nucleic acid hybridization | signal transduction pathways | cell populations in tissues | cell populations in bioreactors | experimental methods | quantitative analysis | computational modeling | cell population scale

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see http://ocw.mit.edu/terms/index.htm

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20.320 Biomolecular Kinetics and Cell Dynamics (MIT)

Description

This class covers analysis of kinetics and dynamics of molecular and cellular processes across a hierarchy of scales, including intracellular, extracellular, and cell population levels; a spectrum of biotechnology applications are also taken into consideration. Topics include gene regulation networks; nucleic acid hybridization; signal transduction pathways; and cell populations in tissues and bioreactors. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling.

Subjects

kinetics of molecular processes | dynamics of molecular processes | kinetics of cellular processes | dynamics of cellular processes | intracellular scale | extracellular scale | and cell population scale | biotechnology applications | gene regulation networks | nucleic acid hybridization | signal transduction pathways | cell populations in tissues | cell populations in bioreactors | experimental methods | quantitative analysis | computational modeling | cell population scale

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see https://ocw.mit.edu/terms/index.htm

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20.320 Analysis of Biomolecular and Cellular Systems (MIT)

Description

This course focuses on computational and experimental analysis of biological systems across a hierarchy of scales, including genetic, molecular, cellular, and cell population levels. The two central themes of the course are modeling of complex dynamic systems and protein design and engineering. Topics include gene sequence analysis, molecular modeling, metabolic and gene regulation networks, signal transduction pathways and cell populations in tissues. Emphasis is placed on experimental methods, quantitative analysis, and computational modeling.

Subjects

biological engineering | kinase | PyMOL | PyRosetta | MATLAB | Michaelis-Menten | bioreactor | bromodomain | protein-ligand interactions | titration analysis | fractional separation | isothermal titration calorimetry | ITC | mass spectrometry | MS | co-immunoprecipitation | Co-IP | Forster resonance energy transfer | FRET | primary ligation assay | PLA | surface plasmon resonance | SPR | enzyme kinetics | kinase engineering | competitive inhibition | epidermal growth factor receptor | mitogen-activated protein kinase | MAPK | genome editing | Imatinib | Gleevec | Glivec | drug delivery | kinetics of molecular processes | dynamics of molecular processes | kinetics of cellular processes | dynamics of cellular processes | intracellular scale | extracellular scale | and cell population scale | biotechnology applications | gene regulation networks | nucleic acid hybridization | signal transduction pathways | cell populations in tissues | cell populations in bioreactors | experimental methods | quantitative analysis | computational modeling

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see https://ocw.mit.edu/terms/index.htm

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Gene Expression and Regulation

Description

The cellular processes that control the rate and manner of gene expression.

Subjects

cellular processes | cells | genetic code | proteins | synthesis | ukoer | genes | leicester university | otter | dentistry | A000

License

Attribution-Noncommercial-Share Alike 2.0 UK: England & Wales Attribution-Noncommercial-Share Alike 2.0 UK: England & Wales http://creativecommons.org/licenses/by-nc-sa/2.0/uk/ http://creativecommons.org/licenses/by-nc-sa/2.0/uk/

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7.349 Biological Computing: At the Crossroads of Engineering and Science (MIT)

Description

Imagine you are a salesman needing to visit 100 cities connected by a set of roads. Can you do it while stopping in each city only once? Even a supercomputer working at 1 trillion operations per second would take longer than the age of the universe to find a solution when considering each possibility in turn. In 1994, Leonard Adleman published a paper in which he described a solution, using the tools of molecular biology, for a smaller 7-city example of this problem. His paper generated enormous scientific and public interest, and kick-started the field of Biological Computing, the main subject of this discussion based seminar course. Students will analyze the Adleman paper, and the papers that preceded and followed it, with an eye for identifying the engineering and scientific aspects of

Subjects

biological computing | Leonard Adleman | exquisite detection | whole-cell computing | computation | molecular biology | biotin-avidin | magnetic beads | cellular processes | combinatorial problems | self-assembly | nanodevices | molecular machines | quorum sensing | molecular switches | ciliates | molecular gates | molecular circuits | genetic switch | cellular networks | genetic networks | genetic circuits

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see https://ocw.mit.edu/terms/index.htm

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20.400J Perspectives in Biological Engineering (MIT)

Description

This seminar-format course provides an in-depth presentation and discussion of how engineering and biological approaches can be combined to solve problems in science and technology, emphasizing integration of biological information and methodologies with engineering analysis, synthesis, and design. Emphasis is placed on molecular mechanisms underlying cellular processes, including signal transduction, gene expression networks, and functional responses.

Subjects

integration of biological information and methodologies | engineering analysis | synthesis | design | molecular mechanisms underlying cellular processes | signal transduction | gene expression networks | functional responses | 20.400 | 7.548

License

Content within individual OCW courses is (c) by the individual authors unless otherwise noted. MIT OpenCourseWare materials are licensed by the Massachusetts Institute of Technology under a Creative Commons License (Attribution-NonCommercial-ShareAlike). For further information see https://ocw.mit.edu/terms/index.htm

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